Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 68 of 218
Found at i:20339158 original size:5 final size:5
Alignment explanation
Indices: 20339138--20339190 Score: 74
Period size: 5 Copynumber: 10.8 Consensus size: 5
20339128 TATAAATTAC
*
20339138 ATAAT AT-AT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATATT ATAAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT
20339187 ATAA
1 ATAA
20339191 AAAAGGATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 6 0.14
5 33 0.77
6 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:20341187 original size:32 final size:32
Alignment explanation
Indices: 20341148--20341215 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
20341138 TTATATAAAT
* *
20341148 GTTACATTTTTGTCACTTATCTGTTAACTTCC
1 GTTACATTTTGGCCACTTATCTGTTAACTTCC
20341180 GTTACATTTTGGCCACTTATCTGTTAACTTCC
1 GTTACATTTTGGCCACTTATCTGTTAACTTCC
20341212 GTTA
1 GTTA
20341216 AGATGGTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (32 bp):
GTTACATTTTGGCCACTTATCTGTTAACTTCC
Found at i:20353725 original size:20 final size:20
Alignment explanation
Indices: 20353700--20353739 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20353690 CCCCTATAGG
*
20353700 ACACTTGTCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
20353720 ACACTTGCCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
20353740 CTGCTTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (20 bp):
ACACTTGCCAACTCTTTACT
Found at i:20358371 original size:20 final size:20
Alignment explanation
Indices: 20358348--20358390 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
20358338 AGTCCCAAAA
*
20358348 TTATTATTCTATA-ATTTTTT
1 TTATT-TTCTATATATATTTT
*
20358368 TTATTTTCTTTATATATTTT
1 TTATTTTCTATATATATTTT
20358388 TTA
1 TTA
20358391 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTCTATATATATTTT
Found at i:20358421 original size:27 final size:26
Alignment explanation
Indices: 20358380--20358442 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
20358370 ATTTTCTTTA
* *
20358380 TATATTTTTTAAAAAATTA-AAATTTT
1 TATAATTTTTAAAAAAATATAAA-TTT
20358406 TATAATTTTTAAAAAAATATAAATTT
1 TATAATTTTTAAAAAAATATAAATTT
*
20358432 TAGAATTTTTA
1 TATAATTTTTA
20358443 TAAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TATAATTTTTAAAAAAATATAAATTT
Found at i:20358444 original size:18 final size:18
Alignment explanation
Indices: 20358423--20358466 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
20358413 TTTAAAAAAA
20358423 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAG-ATTTT
*
20358441 TATAAATATTTTGATTTT
1 TATAAATATTTAGATTTT
20358459 TA-AAATAT
1 TATAAATAT
20358467 ATTTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTAGATTTT
Found at i:20358499 original size:20 final size:20
Alignment explanation
Indices: 20358428--20358499 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
20358418 AAAAATATAA
*
20358428 ATTTTAGAATTTTTATAA-AT
1 ATTTT-GAATTTTTAAAATAT
20358448 ATTTTG-ATTTTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
*
20358467 ATTTTGAAATTTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
20358487 ATTTTGAATTTTT
1 ATTTTGAATTTTT
20358500 TTTATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 9 0.19
19 9 0.19
20 29 0.62
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAATAT
Found at i:20362373 original size:19 final size:19
Alignment explanation
Indices: 20362349--20362391 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
20362339 TTTTATATTT
20362349 AAAATTAATA-AAAATGT-TA
1 AAAATT-ATAGAAAAT-TATA
20362368 AAAATTATAGAAAATTATA
1 AAAATTATAGAAAATTATA
20362387 AAAAT
1 AAAAT
20362392 ATTTAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTATAGAAAATTATA
Found at i:20362381 original size:10 final size:9
Alignment explanation
Indices: 20362349--20362408 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
20362339 TTTTATATTT
20362349 AAAATTAATA
1 AAAATT-ATA
20362359 AAAATGT-TA
1 AAAAT-TATA
20362368 AAAATTATA
1 AAAATTATA
20362377 GAAAATTATA
1 -AAAATTATA
*
20362387 AAAATATTTA
1 AAAAT-TATA
*
20362397 AAGATTATA
1 AAAATTATA
20362406 AAA
1 AAA
20362409 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 1 0.02
9 19 0.45
10 21 0.50
11 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:20362381 original size:29 final size:29
Alignment explanation
Indices: 20362349--20362405 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
20362339 TTTTATATTT
20362349 AAAATTAATAAAAAT-GTTAAAAATTATAG
1 AAAATT-ATAAAAATAGTTAAAAATTATAG
* *
20362378 AAAATTATAAAAATATTTAAAGATTATA
1 AAAATTATAAAAATAGTTAAAAATTATA
20362406 AAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAATAGTTAAAAATTATAG
Found at i:20362389 original size:18 final size:19
Alignment explanation
Indices: 20362368--20362414 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
20362358 AAAAATGTTA
20362368 AAAATTATAGAAA-ATTAT
1 AAAATTATAGAAAGATTAT
* **
20362386 AAAAATATTTAAAGATTAT
1 AAAATTATAGAAAGATTAT
20362405 AAAATATATA
1 AAAAT-TATA
20362415 TATATAAGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTATAGAAAGATTAT
Found at i:20362543 original size:20 final size:20
Alignment explanation
Indices: 20362507--20362589 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
20362497 TTTGTTTAAT
*
20362507 TTATATAAACTAT-AAAAATA
1 TTATAT-AATTATGAAAAATA
20362527 TTATATAATTATGAAAAA-A
1 TTATATAATTATGAAAAATA
* * *
20362546 TTGTAAAATTTGTGAAAATATA
1 TTATATAA-TTATGAAAA-ATA
*
20362568 TTA-A-AAATATAGAAAAATA
1 TTATATAATTAT-GAAAAATA
20362587 TTA
1 TTA
20362590 AAAATATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 20 0.39
20 26 0.51
21 2 0.04
22 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (20 bp):
TTATATAATTATGAAAAATA
Found at i:20362577 original size:9 final size:9
Alignment explanation
Indices: 20362560--20362634 Score: 64
Period size: 9 Copynumber: 8.1 Consensus size: 9
20362550 AAAATTTGTG
20362560 AAAATATATT
1 AAAA-ATATT
*
20362570 AAAAATATAG
1 AAAAATAT-T
20362580 AAAAATATT
1 AAAAATATT
20362589 AAAAATATT
1 AAAAATATT
*
20362598 TAAAA-ATT
1 AAAAATATT
*
20362606 AAGTTAAT-TT
1 AA--AAATATT
*
20362616 AAAATTATT
1 AAAAATATT
20362625 AAAAATATT
1 AAAAATATT
20362634 A
1 A
20362635 TTAAAAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
8 6 0.12
9 28 0.54
10 18 0.35
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATATT
Found at i:20362589 original size:19 final size:20
Alignment explanation
Indices: 20362559--20362596 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
20362549 TAAAATTTGT
20362559 GAAAATATATTAAAAATATA
1 GAAAATATATTAAAAATATA
20362579 GAAAA-ATATTAAAAATAT
1 GAAAATATATTAAAAATAT
20362597 TTAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
GAAAATATATTAAAAATATA
Found at i:20362602 original size:19 final size:19
Alignment explanation
Indices: 20362560--20362633 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
20362550 AAAATTTGTG
**
20362560 AAAATATATTAAAAATATAG
1 AAAA-ATATTAAAAATATTT
20362580 AAAAATATTAAAAATATTT
1 AAAAATATTAAAAATATTT
**
20362599 -AAAA-ATT-AAGTTAATTT
1 AAAAATATTAAAAAT-ATTT
*
20362616 AAAATTATTAAAAATATT
1 AAAAATATTAAAAATATT
20362634 ATTAAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
16 3 0.07
17 7 0.16
18 7 0.16
19 19 0.44
20 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAAATATTT
Found at i:20362817 original size:41 final size:38
Alignment explanation
Indices: 20362743--20362821 Score: 95
Period size: 41 Copynumber: 2.0 Consensus size: 38
20362733 ATATTTTTAT
*
20362743 AATTTTATATATATTTATAATTTCTGCACTTTAAAATA
1 AATTTTATATATATTTATAATTTCTACACTTTAAAATA
* * *
20362781 AATTTTATAATATTTTTAATAAATTTCTATATTTTAAAATA
1 AATTTTAT-ATATATTT-AT-AATTTCTACACTTTAAAATA
20362822 TTTTTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 8 0.24
39 7 0.21
40 2 0.06
41 17 0.50
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
AATTTTATATATATTTATAATTTCTACACTTTAAAATA
Found at i:20362894 original size:20 final size:19
Alignment explanation
Indices: 20362862--20362905 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
20362852 AATATTTTGT
* *
20362862 ATTTTTAATATTTTTTATA
1 ATTTTTAATATTTATAATA
*
20362881 ATTTTTAGTCATTTATAATA
1 ATTTTTAAT-ATTTATAATA
20362901 ATTTT
1 ATTTT
20362906 ATAAGGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTAATATTTATAATA
Found at i:20373499 original size:22 final size:22
Alignment explanation
Indices: 20373449--20373492 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20373439 ATTGTCAAGA
20373449 ATATTTTCTTGTCTCGAATGGC
1 ATATTTTCTTGTCTCGAATGGC
20373471 ATATTTTCTTGTCTCGAATGGC
1 ATATTTTCTTGTCTCGAATGGC
20373493 GAGTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (22 bp):
ATATTTTCTTGTCTCGAATGGC
Found at i:20390434 original size:45 final size:45
Alignment explanation
Indices: 20390365--20390588 Score: 324
Period size: 45 Copynumber: 5.0 Consensus size: 45
20390355 ATGAAATGAC
* *
20390365 ATAAACGAAAAGGAAAAGGCCATAGTTGAAAGATACTATGGCATT
1 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
20390410 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
1 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
* *
20390455 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGAAACTATGACATT
1 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
* * *
20390500 GTAATCAAAAAGGAAAAGACCATAGTTGAAAGATAATATGGCATT
1 ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
** * * *
20390545 A-AATAAAAAATGAAAAAAACAATAGTTGAAAGATACTATGGCAT
1 ATAATCGAAAA-GGAAAAGACCATAGTTGAAAGATACTATGGCAT
20390589 CGTTTGGGGA
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 8 0.05
45 155 0.95
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (45 bp):
ATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATT
Found at i:20392089 original size:110 final size:108
Alignment explanation
Indices: 20391909--20392217 Score: 419
Period size: 109 Copynumber: 2.8 Consensus size: 108
20391899 ATATTTGGCA
* * *
20391909 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCT-TCGAATTTCCAAACGCA
1 ATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCA
* *
20391973 GAACATTGCCTTATTTTGAAATTTTTGAAAAGGATACTT-AG-C
66 AAACATTGCCTTATTTTGAAATTTTTAAAAAGGATA-TTAAGTC
* * *
20392015 TATTTGGTTGAACGAGAAAAATCGACACCTAGTACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 -ATTTGGTTGAACGAG--AAATCGAAACCCAGTACCTTAGGGCACGTTTTCTCGAATTTCCAAAC
20392080 GCAAAACATTGCCTTATTTTGAAAATTTTTAAAAAGGATATTAAGTC
63 GCAAAACATTGCCTTATTTTG-AAATTTTTAAAAAGGATATTAAGTC
* * *
20392127 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGTCACG-TTCCTCGAATTTCCAAACGCA
1 ATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCA
* *
20392191 AAATATTGCATTATTTTGAAATATTTT
66 AAACATTGCCTTATTTTGAAAT-TTTT
20392218 CCTTTTTTGA
Statistics
Matches: 179, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
107 18 0.10
108 40 0.22
109 51 0.28
110 36 0.20
111 33 0.18
112 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCA
AAACATTGCCTTATTTTGAAATTTTTAAAAAGGATATTAAGTC
Found at i:20392685 original size:3 final size:3
Alignment explanation
Indices: 20392664--20392703 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
20392654 TAATGAAAAT
* *
20392664 ATA ATG ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20392704 AGTTAACAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20394695 original size:126 final size:126
Alignment explanation
Indices: 20394560--20394942 Score: 712
Period size: 126 Copynumber: 3.0 Consensus size: 126
20394550 TATCTTGGGA
20394560 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
* * *
20394625 CTACTCTACTGTAACTTCAAAAAGACAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
66 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
20394686 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
*
20394751 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
66 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
20394812 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
* *
20394877 CTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTAATTCGCTCCACTGTAATCTCAGGG
66 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
20394938 AGATA
1 AGATA
20394943 GGATTATTAG
Statistics
Matches: 250, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 250 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (126 bp):
AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
Found at i:20394738 original size:46 final size:45
Alignment explanation
Indices: 20394668--20394865 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 45
20394658 TTTAATCCGC
20394668 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAA-TCTTCGGTCTGT
* * * * * **
20394714 TCCACTGTAATCTCAGGGAAATAAGACCTG----GTGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGT
* * **
20394755 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATC--C-G-C---
1 TCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATCTTCGGTCTGT
*
20394794 TCCACTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAA-TCTTCGGTCTGT
*
20394840 TCCACTGTAATCTCAGGGAAATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
20394866 CCTGGTGCGA
Statistics
Matches: 116, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
38 4 0.03
39 24 0.21
40 2 0.02
41 28 0.24
42 4 0.03
43 1 0.01
44 1 0.01
46 52 0.45
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
TCCACTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGT
Found at i:20394779 original size:41 final size:41
Alignment explanation
Indices: 20394588--20394906 Score: 127
Period size: 41 Copynumber: 7.6 Consensus size: 41
20394578 TTCGGTCTGT
* *
20394588 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGACCTGGTGCGATCTAC
* * * * ** **
20394629 TCTACTGTAA-CTTCAAAAAGACAAGATCCT--T-TAATCCGC
1 TCCACTGTAATC-TCAGAGAGATAAGA-CCTGGTGCGATCTAC
* * * * * **
20394668 TCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGAGAGATAAGACCTG-----GTGCGATCTAC
* *
20394714 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGACCTGGTGCGATCTAC
* ** **
20394755 TCTACTGTAA-CTTCAGAGAGATAAGATCCT--T-TAATCCGC
1 TCCACTGTAATC-TCAGAGAGATAAGA-CCTGGTGCGATCTAC
* * * * **
20394794 TCCACTGTAATCTCA-AGGAGATAAGATCTGAAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGA-GAGATAAGACCTG-----GTGCGATCTAC
* *
20394840 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
1 TCCACTGTAATCTCAGAGAGATAAGACCTGGTGCGATCTAC
*
20394881 TCTACTGTAA-CTTCAGAGAGATAAGA
1 TCCACTGTAATC-TCAGAGAGATAAGA
20394907 TTCTTTAATT
Statistics
Matches: 200, Mismatches: 53, Indels: 50
0.66 0.17 0.17
Matches are distributed among these distances:
38 5 0.03
39 48 0.24
40 7 0.04
41 72 0.36
42 6 0.03
45 2 0.01
46 60 0.30
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
TCCACTGTAATCTCAGAGAGATAAGACCTGGTGCGATCTAC
Found at i:20395026 original size:126 final size:123
Alignment explanation
Indices: 20394560--20395009 Score: 472
Period size: 126 Copynumber: 3.6 Consensus size: 123
20394550 TATCTTGGGA
* ** * *
20394560 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCT--AATTCATCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCAAT
** * * * *
20394625 CTACTCTACTGTAACTTCAAAAAGACAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGG
64 CTACTC-ACTGTAACACCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
* ** * *
20394686 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCT--AATTCATCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCAAT
**
20394751 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
64 CTACTC-ACTGTAACACCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
* ** * *
20394812 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGAT
1 AGATAAGATCT--AATTCATCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCAAT
** * * *
20394877 CTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTAATTCGCTCCACTGTAATCTCAGGG
64 CTACTC-ACTGTAACACCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
* * * *
20394938 AGATAGGAT-T-ATTAGCATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 AGATAAGATCTAATT--CATCAATCTGCTCCACTGTAATCTCAGGGAAATAAGA-C-CTGG-TGC
20395001 AATCTACTC
61 AATCTACTC
20395010 CGTCACAACC
Statistics
Matches: 303, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
122 3 0.01
124 31 0.10
125 2 0.01
126 257 0.85
127 10 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (123 bp):
AGATAAGATCTAATTCATCAATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCAATCT
ACTCACTGTAACACCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGG
Found at i:20395111 original size:88 final size:88
Alignment explanation
Indices: 20395007--20395476 Score: 771
Period size: 88 Copynumber: 5.3 Consensus size: 88
20394997 CTTCAATCTA
* * *
20395007 CTCCGTCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTTAATGCAGGAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
20395072 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
20395095 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
*
20395160 TAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
* * * *
20395183 CTCCGTCACAACTGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCACTGCAGAAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
20395248 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
*
20395271 CTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
*
20395336 CAAGATCTTTTATCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
* * * *
20395359 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTTTTTGACCTGCTTCGCTGTCACTGCAGGAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
* *
20395424 CAAGATCTGTTATCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
*
20395447 CTCCA-CTACAATCGAGAGAGGCAAGGTTTG
1 CTCCATC-ACAACCGAGAGAGGCAAGGTTTG
20395477 CAACTTCATT
Statistics
Matches: 359, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
87 1 0.00
88 358 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
CAAGATCTTTTGTCTTCAACCAG
Found at i:20395117 original size:44 final size:43
Alignment explanation
Indices: 20395069--20395383 Score: 219
Period size: 44 Copynumber: 7.2 Consensus size: 43
20395059 TAATGCAGGA
*
20395069 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCC-TCACAACTGAGAG
* * * * ** *
20395113 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCAA-TGCAGAA
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-CTCACAACTG-AGAG
*
20395157 AGGTAAGATCTTTTGTCTTCAACCAGCTCCGTCACAACTGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCC-TCACAACTGAGAG
* * ** * ** *
20395201 AGGCAAGGT-TTGTGTCTTTGACCTGCTTCGCTGTC-ACTGCAGAA
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-CTCACAACTG-AGAG
*
20395245 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCC-TCACAACTGAGAG
* * * * * ** *
20395289 AGGTAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCAA-TGCAGAA
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-CTCACAACTG-AGAG
* *
20395333 AGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCC-TCACAACTGAGAG
20395377 AGGCAAG
1 AGGCAAG
20395384 GTTTGTGTTT
Statistics
Matches: 200, Mismatches: 53, Indels: 36
0.69 0.18 0.12
Matches are distributed among these distances:
43 50 0.25
44 101 0.50
45 49 0.25
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCCTCACAACTGAGAG
Found at i:20395469 original size:44 final size:45
Alignment explanation
Indices: 20395069--20395471 Score: 136
Period size: 44 Copynumber: 9.2 Consensus size: 45
20395059 TAATGCAGGA
* * *
20395069 AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAG
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCGAGAG
* * * * * * * ** *
20395113 AGGCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAAT-GCAGAA
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCG-AGAG
* * * *
20395157 AGGTAAGATCTTTTGTCTTCAACCAGCTCC-GTCACAA-CTGAGAG
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATC-GAGAG
* * * ** * * * ** * *
20395201 AGGCAAGGTTTG-TGTCTTTGACCTGCTTCGCTGTCACT-GCAGAA
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCG-AGAG
* * *
20395245 AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGAGAG
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCGAGAG
* * * * * * * * ** *
20395289 AGGTAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAAT-GCAGAA
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCG-AGAG
* *
20395333 AGGCAAGATCTTTTATCTTCAACCAGCTCCA-TCACAACCGAGAG
1 AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCGAGAG
* * ** * * * ** *
20395377 AGGCAAGGTTTGTGT-T-TTTGACCTGCTTCGCTGTCACT-GCAG-G
1 AGGCAAGATCTGT-TATCTTCAACCAGCTCCACTCACAATCG-AGAG
20395420 AAGGCAAGATCTGTTATCTTCAACCAGCTCCACT-ACAATCGAGAG
1 -AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCGAGAG
20395465 AGGCAAG
1 AGGCAAG
20395472 GTTTGCAACT
Statistics
Matches: 243, Mismatches: 94, Indels: 44
0.64 0.25 0.12
Matches are distributed among these distances:
43 56 0.23
44 130 0.53
45 57 0.23
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (45 bp):
AGGCAAGATCTGTTATCTTCAACCAGCTCCACTCACAATCGAGAG
Found at i:20396734 original size:15 final size:15
Alignment explanation
Indices: 20396716--20396752 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
20396706 CCATTTTTAC
*
20396716 TTTTTTATTTTTTCA
1 TTTTTTAATTTTTCA
20396731 TTTTTTAATTTTTCA
1 TTTTTTAATTTTTCA
20396746 TCTTTTT
1 T-TTTTT
20396753 TTTGACTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTAATTTTTCA
Found at i:20397670 original size:11 final size:11
Alignment explanation
Indices: 20397656--20397697 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
20397646 TTTTAGATGA
20397656 TTTTTTTTTGT
1 TTTTTTTTTGT
20397667 TTTTTTTTTG-
1 TTTTTTTTTGT
*
20397677 TTTTGTTTTGT
1 TTTTTTTTTGT
20397688 TTTTTTTTTG
1 TTTTTTTTTG
20397698 AGTCTGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:20401400 original size:109 final size:107
Alignment explanation
Indices: 20401085--20401502 Score: 601
Period size: 109 Copynumber: 3.8 Consensus size: 107
20401075 ATATTTGGCA
** * *
20401085 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCATAGGGCACGTTCCTCGAATTTCCAAACGCAA
20401150 AACATTGCCTTATTTTG-AAATTTTTGAAAAGGATACTTAGCT
66 AACATTGCCTTATTTTGAAAATTTTTGAAAAGGATA-TTAGCT
* * * * *
20401192 ATTTGGTTGAACGAGAAAAATCGACACCCAGTA-CATTAGGGCATGTTTTCTCAAATTTCCAAAC
1 ATTTGGTCGAACGAG--AAATCGAAACCCAGTACCA-TAGGGCACG-TTCCTCGAATTTCCAAAC
20401256 GCAAAACATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAG-T
62 GCAAAACATTGCCTTATTTTGAAAATTTTTGAAAAGGATATT-AGCT
*
20401302 CATTTGGTCGAACGAGAAATCGAAACCCAGTACCATAGGGCACGTTCCTCGAATTTCTAAACGCA
1 -ATTTGGTCGAACGAGAAATCGAAACCCAGTACCATAGGGCACGTTCCTCGAATTTCCAAACGCA
20401367 AAACATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTTAGCT
65 AAACATTGCCTTA-TTTTGAAAA-TTTTTGAAAAGGATA-TTAGCT
*
20401412 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCATAGGGCACGTTCCTCGAATTTCCAAACGCAA
*
20401477 AATATTGCCTTATTTTGAAATATTTT
66 AACATTGCCTTATTTTGAAA-ATTTT
20401503 CCTTTTTTGA
Statistics
Matches: 282, Mismatches: 16, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
107 14 0.05
108 44 0.16
109 140 0.50
110 50 0.18
111 34 0.12
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
ATTTGGTCGAACGAGAAATCGAAACCCAGTACCATAGGGCACGTTCCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAGCT
Found at i:20401499 original size:18 final size:17
Alignment explanation
Indices: 20401476--20401517 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
20401466 TCCAAACGCA
20401476 AAATATTGCCTTATTTTG
1 AAATATTGCCTT-TTTTG
*
20401494 AAATATTTTCCTTTTTTG
1 AAATA-TTGCCTTTTTTG
20401512 AAATAT
1 AAATAT
20401518 GAAGTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (17 bp):
AAATATTGCCTTTTTTG
Found at i:20403249 original size:22 final size:23
Alignment explanation
Indices: 20403223--20403287 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
20403213 TGTTTTCTAA
20403223 TTTGGGTCGGATTTTTATTGGG-
1 TTTGGGTCGGATTTTTATTGGGC
*
20403245 TTTGGGTTGGTTATTTGTTATTGGGC
1 TTTGGGTCGG--ATTT-TTATTGGGC
*
20403271 TGATTGGGTCTGATTTT
1 T--TTGGGTCGGATTTT
20403288 AGGTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 9 0.26
24 4 0.12
25 9 0.26
26 5 0.15
28 7 0.21
ACGTcount: A:0.09, C:0.05, G:0.34, T:0.52
Consensus pattern (23 bp):
TTTGGGTCGGATTTTTATTGGGC
Found at i:20422553 original size:19 final size:19
Alignment explanation
Indices: 20422529--20422639 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
20422519 AATCATATCT
20422529 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
20422548 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
20422567 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
20422586 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
20422605 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20422624 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
20422640 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20422575 original size:38 final size:38
Alignment explanation
Indices: 20422529--20422632 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
20422519 AATCATATCT
20422529 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
20422567 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
20422605 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
20422633 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:20427895 original size:4 final size:4
Alignment explanation
Indices: 20427886--20427910 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20427876 TTTTGACATT
20427886 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
20427911 AATACTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:20432097 original size:23 final size:24
Alignment explanation
Indices: 20432045--20432097 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
20432035 AATTTTTTTT
* *
20432045 TTCGAATTTCGAGTTCGAGTCAAG
1 TTCGAATTTCGAATTCGAATCAAG
20432069 TT-GAATTTCCGAATTCGAAT-AA-
1 TTCGAATTT-CGAATTCGAATCAAG
20432091 TTCGAAT
1 TTCGAAT
20432098 AAAAACTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 11 0.44
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (24 bp):
TTCGAATTTCGAATTCGAATCAAG
Found at i:20434999 original size:16 final size:17
Alignment explanation
Indices: 20434978--20435009 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20434968 AAATATGCAA
20434978 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
20434994 TCACATAACTTCATAT
1 TCACATAACTTCATAT
20435010 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:20435236 original size:43 final size:43
Alignment explanation
Indices: 20435170--20435313 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
20435160 GACTCGTACA
*
20435170 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATATCG
* *
20435213 ATGCCACTGTCCCAGGCAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
* * *
20435254 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATA-TCG
20435297 ATGCCGAC-GTCCCAGAC
1 ATGCC-ACTGTCCCAGAC
20435314 GTCTTACACG
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
41 30 0.35
42 15 0.17
43 39 0.45
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
Found at i:20438165 original size:24 final size:24
Alignment explanation
Indices: 20438129--20438177 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
20438119 CGATTGAAAC
20438129 TAACCTTGCTGTGCCAAGTTCAAA
1 TAACCTTGCTGTGCCAAGTTCAAA
*
20438153 TAACCTTGTTGTGCCAAGTTCAAA
1 TAACCTTGCTGTGCCAAGTTCAAA
20438177 T
1 T
20438178 CTTTCTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (24 bp):
TAACCTTGCTGTGCCAAGTTCAAA
Found at i:20442226 original size:16 final size:17
Alignment explanation
Indices: 20442205--20442236 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20442195 AAATATGCAA
20442205 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
20442221 TCACATAACTTCATAT
1 TCACATAACTTCATAT
20442237 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:20442463 original size:43 final size:43
Alignment explanation
Indices: 20442397--20442567 Score: 169
Period size: 43 Copynumber: 4.0 Consensus size: 43
20442387 GACTCGTACA
*
20442397 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCACATATCG
* *
20442440 ATGCCACTGTCCCAGGCAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
* * *
20442481 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATA-TCG
*
20442524 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACGATAA-CATATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-TAATCACATATCG
20442567 A
1 A
20442568 AAATCCTATG
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
41 30 0.28
42 15 0.14
43 57 0.53
44 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATATCG
Found at i:20442538 original size:84 final size:84
Alignment explanation
Indices: 20442397--20442554 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
20442387 GACTCGTACA
* * * *
20442397 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGGCAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTGG
20442461 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
*
20442481 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCGAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTG
20442544 GTCTTACACGA
64 GTCTTACACGA
20442555 TAACATATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:20447803 original size:17 final size:18
Alignment explanation
Indices: 20447777--20447814 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
20447767 TTAATTTAAA
* *
20447777 TAAATTATTTTTTCAA-T
1 TAAATAATTTTCTCAACT
20447794 TAAATAATTTTCTCAACT
1 TAAATAATTTTCTCAACT
20447812 TAA
1 TAA
20447815 TTCTAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATAATTTTCTCAACT
Found at i:20452426 original size:21 final size:21
Alignment explanation
Indices: 20452402--20452444 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20452392 ATGAATTATT
*
20452402 TATGTTATATATGTATTAATG
1 TATGTAATATATGTATTAATG
* *
20452423 TATGTAATGTATGTTTTAATG
1 TATGTAATATATGTATTAATG
20452444 T
1 T
20452445 TTCGTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
TATGTAATATATGTATTAATG
Found at i:20455412 original size:123 final size:122
Alignment explanation
Indices: 20455192--20455444 Score: 400
Period size: 123 Copynumber: 2.1 Consensus size: 122
20455182 AAATAGTGGG
** * *
20455192 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCCCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGTCGCCCCGTGGACGCGATT
20455257 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACG-TTTCTGAGCAAATAGTATA
*
20455315 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCG-CGCCCTCGTGGATGCGAT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGTCGCCC-CGTGGACGCGAT
* * *
20455379 TTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTGTC
65 TTCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
20455438 AAATCGC
1 AAATCGC
20455445 GCCCTCGTGG
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
122 4 0.03
123 88 0.73
124 28 0.23
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (122 bp):
AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGTCGCCCCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:20458713 original size:23 final size:23
Alignment explanation
Indices: 20458681--20458858 Score: 176
Period size: 23 Copynumber: 7.0 Consensus size: 23
20458671 ATTAGGTTAG
20458681 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
20458704 GGTTATGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
20458727 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
20458755 GGTTAGAGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
20458778 GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTA
1 GGTTAGGG-T-----TTTTAATT-AA--A--TTA
20458812 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
20458836 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
20458859 AATTAGGTTA
Statistics
Matches: 133, Mismatches: 5, Indels: 34
0.77 0.03 0.20
Matches are distributed among these distances:
23 68 0.51
24 6 0.05
25 3 0.02
26 4 0.03
27 2 0.02
28 19 0.14
29 16 0.12
30 2 0.02
32 1 0.01
34 4 0.03
35 8 0.06
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:20458748 original size:28 final size:28
Alignment explanation
Indices: 20458648--20459754 Score: 1180
Period size: 28 Copynumber: 40.7 Consensus size: 28
20458638 GTTGAGTTAT
20458648 GTTAGGGTTTTTACATT-AATTAAATTAG
1 GTTAGGGTTTTTA-ATTAAATTAAATTAG
20458676 GTTAGGGTTAGGGTTT--TT-AATTAAATTAG
1 GTTAGGGTT----TTTAATTAAATTAAATTAG
*
20458705 GTTATGG--TTT--TT-AATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20458728 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* **
20458756 GTTAGAGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
* **
20458785 GTTAGGGATTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
20458814 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20458837 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAG
1 GTTAGGGTTTTTAATTAAATT-AA--A--TTAG
* **
20458870 GTTAGGGATTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
20458899 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20458922 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
20458950 GTTAGGGTTTTTAATTAAATTAGGTTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20458978 GTTAGTGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459001 GTTAGGGTTTTTAATTAAATTAAATTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
20459029 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
* **
20459058 GTTAGGGATTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
20459087 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459110 GTTATGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459138 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459166 GTTAGGGTTTTTAATTAAGTT--A--A-
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* * *
20459189 GTTAAGGTTTTTAATTATATTAAGTTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
20459217 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
*
20459246 GTTAGGGTTTTTAACTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
20459269 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
*
20459298 GTTAGGGTTTTTAACTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459321 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
**
20459349 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
* *
20459378 GTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTA----A--ATTA-G
**
20459413 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAATTA-G
20459442 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459470 GTTAGGGTTTTTAATTAAGTT--A--A-
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459493 GTTAGGGTTTTTAATTAAATTAAATTAT
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459521 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459549 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459577 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459600 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459628 GTTAGGGTTTTTAATTAAATT--A-T--
1 GTTAGGGTTTTTAATTAAATTAAATTAG
20459651 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459679 GTTAGGGTTTTTAATTAAATTAAATTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAG
* * *
20459707 GTTAGGGTTTTAAATTATATTAAGTTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAG
*
20459735 GTTAGGGTTTTTAATCAAAT
1 GTTAGGGTTTTTAATTAAAT
20459755 AATGTCAAAA
Statistics
Matches: 942, Mismatches: 61, Indels: 152
0.82 0.05 0.13
Matches are distributed among these distances:
23 224 0.24
24 2 0.00
25 13 0.01
26 16 0.02
27 4 0.00
28 401 0.43
29 230 0.24
31 1 0.00
32 4 0.00
33 20 0.02
35 27 0.03
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (28 bp):
GTTAGGGTTTTTAATTAAATTAAATTAG
Found at i:20458769 original size:51 final size:51
Alignment explanation
Indices: 20458663--20459754 Score: 1124
Period size: 51 Copynumber: 20.2 Consensus size: 51
20458653 GGTTTTTACA
*
20458663 TTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAATTAGGTTATGGTTT
1 TTAATTAAATTAGGTTAGGGTT----TTTAATTAAATTAAATTAGGTTAGGGTTT
*
20458715 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
**
20458766 TTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTAAATTA-GGTTAGGGTTT
* *
20458824 TTAATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATT-AA--A--TTAGGTTAGGGTTT
*
20458880 TTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAATTATGTTAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTT----TTTAATTAAATTAAATTAGGTTAGGG--TTT
** *
20458934 AATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGTGTTT
1 --TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
* *
20458988 TTAATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAAGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
**
20459039 TTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTAAATTA-GGTTAGGGTTT
* *
20459097 TTAATTAAATTATGTTATGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGG--TTT
* *
20459150 AATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAAGTTAAGGTT----TTT
1 --TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATT-AGGTTAGGGTTT
* **
20459201 AATTATATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 --TTA-ATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTT
* * **
20459256 TTAACTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTT
* *
20459308 TTAACTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
*
20459359 TTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTA----A--ATTA-GGTTAGGGTTT
20459423 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
1 TTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
* * *
20459480 TTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAAATTATGTTAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGG--TTT
20459533 AATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
1 --TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
*
20459587 TTAATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
*
20459638 TTAATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGG--TTT
* * * *
20459691 AATTAAATTAAATTAAGTTAGGGTTTTAAATTATATTAAGTTAGGTTAGGGTTT
1 --TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
*
20459745 TTAATCAAAT
1 TTAATTAAAT
20459755 AATGTCAAAA
Statistics
Matches: 908, Mismatches: 57, Indels: 151
0.81 0.05 0.14
Matches are distributed among these distances:
48 3 0.00
50 4 0.00
51 320 0.35
52 158 0.17
53 16 0.02
54 12 0.01
55 11 0.01
56 169 0.19
57 99 0.11
58 62 0.07
60 4 0.00
61 1 0.00
63 3 0.00
64 31 0.03
65 2 0.00
67 1 0.00
69 4 0.00
70 8 0.01
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (51 bp):
TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
Found at i:20459417 original size:35 final size:35
Alignment explanation
Indices: 20459371--20459478 Score: 155
Period size: 35 Copynumber: 3.1 Consensus size: 35
20459361 AATTAAATTA
20459371 GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAG
*
20459406 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAG
*** * *
20459441 GGTTAGGGTT-TTTAATTAAATTAAATTAGGTTAG
1 GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAG
20459475 GGTT
1 GGTT
20459479 TTTAATTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
34 22 0.33
35 44 0.67
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.43
Consensus pattern (35 bp):
GGTTAGGGTTAGGGATTTTAATTAAATTAGGTTAG
Found at i:20461917 original size:14 final size:15
Alignment explanation
Indices: 20461900--20461933 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20461890 AATAAATATC
20461900 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
20461914 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
20461929 TAAAA
1 TAAAA
20461934 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:20462159 original size:22 final size:22
Alignment explanation
Indices: 20462129--20462170 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20462119 ATTTGGAGAT
*
20462129 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
20462151 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
20462171 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:20462178 original size:30 final size:30
Alignment explanation
Indices: 20462142--20462200 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
20462132 TTGAAGGAAA
* *
20462142 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGAATTTGAGAGT
20462172 TTGAGAGAATTTTGAAAGGAATTTGAGAG
1 TTGAGAGAATTTTGAAAGGAATTTGAGAG
20462201 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGAATTTGAGAGT
Found at i:20462215 original size:23 final size:23
Alignment explanation
Indices: 20462171--20462232 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
20462161 AATTTGAGAG
20462171 TTTGAGAGAA-TTTTGAAAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
*
20462193 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
20462216 -TTGAGAGAATTTTTGAA
1 TTTGAGAGAATTTTTGAA
20462233 GGATATTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 27 0.71
23 11 0.29
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (23 bp):
TTTGAGAGAATTTTTGAAAGGAA
Found at i:20462229 original size:22 final size:21
Alignment explanation
Indices: 20462172--20462241 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 21
20462162 ATTTGAGAGT
20462172 TTGAGAGAA-TTTTGAAAGGAA
1 TTGAGAGAATTTTTG-AAGGAA
20462193 TTTGAGAGAATTTTTGAACGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
20462216 TTGAGAGAATTTTTGAAGGATA
1 TTGAGAGAATTTTTGAAGGA-A
20462238 TTGA
1 TTGA
20462242 TATTGAATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.07
22 33 0.73
23 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.34
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:20462460 original size:40 final size:40
Alignment explanation
Indices: 20462416--20462508 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 40
20462406 CTTCCTCAAA
20462416 GACGCGATTTCCT-TCCACGT-CAG-CAGGTCGCGCTGACGTG
1 GACGCGATTTCCTGT-CACGTCCAGACA--TCGCGCTGACGTG
* *
20462456 GACGCGATGTCCTGTCACGTACCCTGACATCGCGCTGACGTG
1 GACGCGATTTCCTGTCACGT--CCAGACATCGCGCTGACGTG
20462498 GACGCGATTTC
1 GACGCGATTTC
20462509 GTAAAAGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
40 17 0.38
41 1 0.02
42 23 0.51
43 2 0.04
44 2 0.04
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.23
Consensus pattern (40 bp):
GACGCGATTTCCTGTCACGTCCAGACATCGCGCTGACGTG
Found at i:20469479 original size:22 final size:21
Alignment explanation
Indices: 20469449--20469494 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20469439 ATTCAACTAT
* * *
20469449 ATTTTAAAAACAAAATGGAACC
1 ATTTGAAAAA-AAAAAGGAAAC
20469471 ATTTGAAAAAAAAAAGGAAAC
1 ATTTGAAAAAAAAAAGGAAAC
20469492 ATT
1 ATT
20469495 ATGTTATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.22
Consensus pattern (21 bp):
ATTTGAAAAAAAAAAGGAAAC
Found at i:20479084 original size:121 final size:121
Alignment explanation
Indices: 20478870--20479094 Score: 423
Period size: 121 Copynumber: 1.9 Consensus size: 121
20478860 CGGACTTAAC
20478870 CTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAGTAACTTAG
1 CTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAGTAACTTAG
*
20478935 TCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCACCGGTAGTAACTTGAG
66 TCATGGGAGATAAAATCAGGGAGAATCCCTCGACAAACCACCGGTAGTAACTTGAG
*
20478991 CTTCTCAAAGCTCGACTGATACTCCTTAGACCACCTGAATGGGGCATTCTTACGCAGTAACTTAG
1 CTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAGTAACTTAG
*
20479056 TCATGGGAGATAAAATTAGGGAGAATCCCTCGACAAACC
66 TCATGGGAGATAAAATCAGGGAGAATCCCTCGACAAACC
20479095 TTCGATAGTA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 101 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (121 bp):
CTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAGTAACTTAG
TCATGGGAGATAAAATCAGGGAGAATCCCTCGACAAACCACCGGTAGTAACTTGAG
Found at i:20486716 original size:21 final size:21
Alignment explanation
Indices: 20486687--20486730 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20486677 CAAAAGAAGA
20486687 AGGAACACGCCCAGTCCAATC
1 AGGAACACGCCCAGTCCAATC
* *
20486708 AGGAGCACGCCCAGTCTAATC
1 AGGAACACGCCCAGTCCAATC
20486729 AG
1 AG
20486731 CCAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.34, G:0.23, T:0.11
Consensus pattern (21 bp):
AGGAACACGCCCAGTCCAATC
Found at i:20492036 original size:18 final size:18
Alignment explanation
Indices: 20492010--20492064 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
20492000 TTAGGAATAC
*
20492010 TTTTATCTCAAAAGAGCT
1 TTTTGTCTCAAAAGAGCT
20492028 TTTTGTCTCAAAAGTAG-T
1 TTTTGTCTCAAAAG-AGCT
* *
20492046 CTTTGTCTCAAAAGTGCT
1 TTTTGTCTCAAAAGAGCT
20492064 T
1 T
20492065 CTTAGAAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.90
19 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (18 bp):
TTTTGTCTCAAAAGAGCT
Found at i:20494588 original size:10 final size:10
Alignment explanation
Indices: 20494573--20494598 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20494563 TTTTGATTGA
20494573 AATATTTAGC
1 AATATTTAGC
20494583 AATATTTAGC
1 AATATTTAGC
20494593 AATATT
1 AATATT
20494599 AACTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (10 bp):
AATATTTAGC
Found at i:20497092 original size:90 final size:90
Alignment explanation
Indices: 20496978--20497190 Score: 275
Period size: 90 Copynumber: 2.4 Consensus size: 90
20496968 ACACTGGTAA
* * * **
20496978 ATGGTTGT-GAGTACACAACGTAATTGCAGATGAGAGCAGCCAGAATGTGGGTGGATGAACCACC
1 ATGGTTGTGGA-TACACAACATAATTGCAGATAAGAGCAGCCAAAAAATGGGTGGATGAACCACC
* *
20497042 AATGTTGCAGGTTAATATGTTGTTAG
65 AATGTTGCAGGTTAATATGCTGTCAG
* **
20497068 ATGGTTGTGGATACACAACATAATTGTAGATAAGAGTTGCCAAAAAATGGGTGGATGAACCACCA
1 ATGGTTGTGGATACACAACATAATTGCAGATAAGAGCAGCCAAAAAATGGGTGGATGAACCACCA
*
20497133 ATGTTGTAGGTTAATATGCTGTCAG
66 ATGTTGCAGGTTAATATGCTGTCAG
* * * *
20497158 ATGGTTGTGAATGCACAACATATTTGCATATAA
1 ATGGTTGTGGATACACAACATAATTGCAGATAA
20497191 AAGTTACCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 104 0.98
91 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (90 bp):
ATGGTTGTGGATACACAACATAATTGCAGATAAGAGCAGCCAAAAAATGGGTGGATGAACCACCA
ATGTTGCAGGTTAATATGCTGTCAG
Found at i:20497213 original size:90 final size:90
Alignment explanation
Indices: 20497029--20497248 Score: 255
Period size: 90 Copynumber: 2.4 Consensus size: 90
20497019 AGAATGTGGG
* * *
20497029 TGGATGAACCACCAATGTTGCAGGTTAATATGTTGTTAGATGGTTGTGGATACACAACATAATTG
1 TGGATGAACCACCAATGTTGCAGGTTAATATGCTGTCAGATGGTTGTGAATACACAACATAATTG
* * * * *
20497094 TAGATAAGAGTTGCCAAAAAATGGG
66 CAGATAAAAGTTACCAAAAAATCGA
* * *
20497119 TGGATGAACCACCAATGTTGTAGGTTAATATGCTGTCAGATGGTTGTGAATGCACAACATATTTG
1 TGGATGAACCACCAATGTTGCAGGTTAATATGCTGTCAGATGGTTGTGAATACACAACATAATTG
* * * *
20497184 CATATAAAAGTTACCAGATAATCTA
66 CAGATAAAAGTTACCAAAAAATCGA
* *
20497209 TGGATGAACCACCAGA-GTTGCAGATTATTAAT-CTGTCAGA
1 TGGATGAACCACCA-ATGTTGCAGGTTAAT-ATGCTGTCAGA
20497249 ACTTCCTCCT
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 107 0.97
91 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (90 bp):
TGGATGAACCACCAATGTTGCAGGTTAATATGCTGTCAGATGGTTGTGAATACACAACATAATTG
CAGATAAAAGTTACCAAAAAATCGA
Found at i:20502623 original size:29 final size:29
Alignment explanation
Indices: 20502573--20502650 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
20502563 CCAAAACTAT
* * *
20502573 ACATTAACTATGGTTTAATGTGTAATTGTAC
1 ACATGAACTTTGGTTT--TGTGCAATTGTAC
* *
20502604 ACATGAACTTTGGTTTTGTGCAATTTTAT
1 ACATGAACTTTGGTTTTGTGCAATTGTAC
* *
20502633 ACATGAAATTTGGATTTG
1 ACATGAACTTTGGTTTTG
20502651 ATCAAATTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 26 0.65
31 14 0.35
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (29 bp):
ACATGAACTTTGGTTTTGTGCAATTGTAC
Found at i:20507261 original size:20 final size:20
Alignment explanation
Indices: 20507231--20507270 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20507221 TTTTTTTTTT
20507231 GCATTCATTTCA-TTCATCA
1 GCATTCATTTCATTTCATCA
20507250 GCATTACATTTCATTTCATCA
1 GCATT-CATTTCATTTCATCA
20507271 TATGCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (20 bp):
GCATTCATTTCATTTCATCA
Found at i:20508344 original size:28 final size:28
Alignment explanation
Indices: 20508312--20508367 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
20508302 CTCTTCTGGA
*
20508312 GAAGGAAACAACAATGCTTTTCATAAAC
1 GAAGGAAACAACAATACTTTTCATAAAC
20508340 GAAGGAAACAACAATACTTTTCATAAAC
1 GAAGGAAACAACAATACTTTTCATAAAC
20508368 TCTCTACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (28 bp):
GAAGGAAACAACAATACTTTTCATAAAC
Found at i:20511698 original size:36 final size:36
Alignment explanation
Indices: 20511647--20511719 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
20511637 AAGAAGAACA
*
20511647 TCCCCAGAAATTAAACTTTGATGGGGCCTCAAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
*
20511683 TCCCCAGAAACTAAACTTTGATGGGGCCTCCAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
20511719 T
1 T
20511720 ATGGGTAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (36 bp):
TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
Found at i:20513314 original size:44 final size:44
Alignment explanation
Indices: 20513264--20513677 Score: 404
Period size: 44 Copynumber: 9.4 Consensus size: 44
20513254 GTGGTGAATT
* * * * *
20513264 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATC
1 TTATCTCCCTGAAGT-TGTAGTGGAGCAGATTGAAGCTACAAATC
* *
20513308 TTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTACAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
* * * *
20513352 TTATCTCCCTGAAGTTGAAATGGAGCAGATTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
** ** * *
20513396 TTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
* *
20513440 TTATCTCCTTGAAGTTGTAGTGGACCAGATTTG-AGC-ACAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTGAAGCTACAAATC
* * * *
20513483 TTATCTCCGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTT
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA-TC
* * * * **
20513527 TTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA-CAAATC
* * *
20513572 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
* * * **
20513616 TTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA-CAAATC
* *
20513661 CTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
20513678 CGGTTGAGTG
Statistics
Matches: 315, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.01
43 41 0.13
44 214 0.68
45 56 0.18
46 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATC
Found at i:20513600 original size:89 final size:88
Alignment explanation
Indices: 20513303--20513728 Score: 414
Period size: 89 Copynumber: 4.8 Consensus size: 88
20513293 TTAAAGCCAC
* *
20513303 GAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
* * * * *
20513368 GAAATGGAGCAGATTGGAGTTAC
66 GCAGTGGAGCAGATTGAAGATAT
* * ** ** * *
20513391 AAATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATCTTATCTCCTTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
* * *
20513456 GTAGTGGACCAGATTTG-AGCACA-
66 GCAGTGGAGCAGA-TTGAAG-ATAT
* * * * *
20513479 -AATCTTATCTCCGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAGT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA-TCTTATCTCCCTGAAGT
*
20513542 TGCAGCGGAGCAGATTGAAGATAGT
65 TGCAGTGGAGCAGATTGAAGATA-T
* * *
20513567 GAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
*
20513632 GCAGTGGAGCGGATTGAAGATAGT
66 GCAGTGGAGCAGATTGAAGATA-T
* * * * ** ** *
20513656 GAATCCTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAAA-CTACACTTCCTATAC-CCCTGAAG
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTAT-CTCCCTGAAG
20513719 TTGCAGTGGA
64 TTGCAGTGGA
20513729 TTAGAACAAT
Statistics
Matches: 280, Mismatches: 48, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
86 8 0.03
87 62 0.22
88 67 0.24
89 137 0.49
90 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (88 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATAT
Found at i:20513631 original size:176 final size:176
Alignment explanation
Indices: 20513264--20513639 Score: 470
Period size: 176 Copynumber: 2.1 Consensus size: 176
20513254 GTGGTGAATT
* * *
20513264 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATCTTATCTCCCTGAAGTTGTAA
1 TTATCTCCCTGAAGT-TGTAGTGGACCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAA
* * * *
20513328 TGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGAAATGGAGCAGATTGGAGTTACAA
65 TGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAACGGAGCAGATTGAAGATACAA
* * * *
20513393 ATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
130 ATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
* ** * *
20513440 TTATCTCCTTGAAGTTGTAGTGGACCAGATTTGAG-CACAAATCTTATCTCCGTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGTAGTGGACCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
* * * * **
20513504 GGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTG
66 GGAGCAGATTAAAGCCACAAA-TCTTATCTCCCTGAAGTTGAAACGGAGCAGATTGAAGATA-CA
* * *
20513568 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
129 AATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
*
20513616 TTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCCCTGAAGTTGTAGTGGA
20513640 GCGGATTGAA
Statistics
Matches: 170, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
174 3 0.02
175 76 0.45
176 91 0.54
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (176 bp):
TTATCTCCCTGAAGTTGTAGTGGACCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
GGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAACGGAGCAGATTGAAGATACAAA
TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
Found at i:20513691 original size:45 final size:45
Alignment explanation
Indices: 20513527--20513694 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 45
20513517 GCCAAAAGTT
** *
20513527 TTATCTC-CTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCTC-TGAAGTTGCAGTAGAGCGGATTGAAGATAGTGAATC
* * **
20513572 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTA-CAAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCGGATTGAAGATAGTGAATC
* *
20513616 TTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGATAGTGAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCGGATTGAAGATAGTGAATC
* * * *
20513661 CTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAA
1 TTATCTCTCTGAAGTTGCAGTAGAGCGGATTGAA
20513695 ACTACACTTC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 38 0.36
45 66 0.63
46 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCGGATTGAAGATAGTGAATC
Found at i:20515628 original size:3 final size:3
Alignment explanation
Indices: 20515620--20515713 Score: 84
Period size: 3 Copynumber: 30.7 Consensus size: 3
20515610 TTTATGCACC
* * * *
20515620 ATT ATT ATT ATC ATT ATT -TT ATTT ATT -TAT ATT ATT AAT ATA ATA
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
* *
20515665 ATA ATT ATGCT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20515712 AT
1 AT
20515714 AAATTGATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
2 3 0.04
3 67 0.87
4 4 0.05
5 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:20517379 original size:19 final size:19
Alignment explanation
Indices: 20517355--20517400 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20517345 AAGTATCTTT
*
20517355 TTTGCATT-CATTTCATGCA
1 TTTGCATTCCATTACAT-CA
20517374 TTTGCATTCCATTACATCA
1 TTTGCATTCCATTACATCA
*
20517393 TATGCATT
1 TTTGCATT
20517401 AGACACCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.46
Consensus pattern (19 bp):
TTTGCATTCCATTACATCA
Found at i:20520279 original size:21 final size:22
Alignment explanation
Indices: 20520241--20520289 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
20520231 ATGAAATGAA
*
20520241 AAAAAT-AAAAAAGTGAAAAGG
1 AAAAATGAAAAAAGTGAAAAAG
*
20520262 AAAAATGAAAAATG-GAAAAAG
1 AAAAATGAAAAAAGTGAAAAAG
*
20520283 TAAAATG
1 AAAAATG
20520290 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAAATGAAAAAAGTGAAAAAG
Found at i:20520287 original size:14 final size:14
Alignment explanation
Indices: 20520248--20520291 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20520238 GAAAAAAATA
20520248 AAAAAGTGAAAA-GG
1 AAAAAGT-AAAATGG
*
20520262 AAAAATGAAAAATGG
1 AAAAA-GTAAAATGG
20520277 AAAAAGTAAAATGG
1 AAAAAGTAAAATGG
20520291 A
1 A
20520292 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (14 bp):
AAAAAGTAAAATGG
Found at i:20521661 original size:44 final size:44
Alignment explanation
Indices: 20521600--20522783 Score: 930
Period size: 44 Copynumber: 26.7 Consensus size: 44
20521590 ATACTGGTGG
**
20521600 TGAAGTAGATC-GAAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
*** * * *
20521644 TGAAGTAGATCAGAGATAGTGGATCTTGTCTTCCTGTACTGGCA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* * *
20521688 GTGAAGTAGATC-GAAGA-AAGCAGATCTTGTCTTCCTATACTGGTGGC-
1 -TGAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTA-T--TGACA
* * * * *
20521735 -GAAGTAGATCAAAGA-AAGCAGATCTTATCTTCCCATACTAGT-A-G
1 TGAAGTAGATCAGAGATAA-CAGATCTTGTCTT--CAT-GTATTGACA
* *
20521779 TGAAGTAGATC-GAAGA-AAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTATTGACA
** *
20521823 TGAAGTAGATC-GAAGATAACAGATCTTGTCTTCCCGTACTGGTG-GA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTA-T--TGACA
* *
20521869 -GAAGTAGATC-GAAGA-AAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTATTGACA
* * *
20521912 TGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
* * ** *
20521956 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGC-
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTT--CAT-GTATTGACA
* *
20522002 -GAAGTAGATC-GAAGA-AAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTATTGACA
** * *
20522045 TGAAGTAGATC-GAAGATAGTAGATCTTGTATTCATTTATTGACA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
* *
20522089 TGAAGTAGATCAGAGATAAAATATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* **
20522133 TGAAGTAAATCAGAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* * * * * * *
20522177 TAAAATAGATCAAAGATAGCAGATCTTGTCTTCTCATACTAGTG--G
1 TGAAGTAGATCAGAGATAACAGATCTTGTC-T-TCAT-GTATTGACA
* * * *
20522222 TGAAATATATC-GA-ATATAGTAGATCTTGTATTCATGTATTGACA
1 TGAAGTAGATCAGAGATA-A-CAGATCTTGTCTTCATGTATTGACA
*
20522266 TGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
**
20522310 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* * * *** * ***
20522354 TGAAGTAGATCAAAGATAGCAGATCTTGACTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTA-TTGACA
**
20522399 TGAAGTAGATC-GAAGATAGTAGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
* * *
20522443 TAAAGAAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
**
20522487 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* * *** * ***
20522531 TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTA-TTGACA
*
20522576 TGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
* **
20522620 TGATGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACA
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
* * * * *** * ***
20522664 TGAAGTAGATCAAAGATAGCAAATTTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTA-TTGACA
** *
20522709 TGAAGTAGATC-GAAGATAATGGATATTGTCTTCATGTATTGACA
1 TGAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTATTGACA
*
20522753 TGAAGTAGATCAGAGATAGCAGATCTTGTCT
1 TGAAGTAGATCAGAGATAACAGATCTTGTCT
20522784 ACCTGTACTA
Statistics
Matches: 924, Mismatches: 164, Indels: 104
0.78 0.14 0.09
Matches are distributed among these distances:
42 14 0.02
43 13 0.01
44 594 0.64
45 274 0.30
46 10 0.01
47 13 0.01
48 6 0.01
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (44 bp):
TGAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTATTGACA
Found at i:20521972 original size:133 final size:133
Alignment explanation
Indices: 20521566--20522792 Score: 1084
Period size: 133 Copynumber: 9.2 Consensus size: 133
20521556 AGCAGGTTGA
* ** *
20521566 AAAGATAACAGATATTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATG--GATCTTGT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGA-AA-GCAGATCTTGT
* ** * * *
20521629 CTTCATGTATTGACATGAAGTAGATC-AGAGATAGTGGATCTTGTCTTCCTGTACTGGCAGTGAA
64 CTTCATGTATTGACGTGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGTATTGACA-TGAA
20521693 GTAGATC
127 GTAGATC
* * * * *
20521700 GAAGA-AAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTATC
1 AAAGATAA-CAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTC
* * * * *
20521764 TTCCCATACTAGT-A-GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
65 TT--CAT-GTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAA
20521827 GTAGATC
127 GTAGATC
* *
20521834 GAAGATAACAGATCTTGTCTTCCCGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCT
* * *
20521899 TCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 TCATGTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAG
20521964 ATC
131 ATC
** *
20521967 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCT
* * * *
20522032 TCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTATTCATTTATTGACATGAAGTAG
66 TCATGTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAG
20522097 ATC
131 ATC
* * * * * *
20522100 AGAGATAAAATATCTTGTCTTCATGTA-T--TGACATGAAGTAAATC-AGAGATAATG--GATCT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTG-GA-GAAGTAGATCGA-AGA-AA-GCAGATCT
* * * * * * *
20522159 TGTCTTCATGTATTGACATAAAATAGATCAAAGATAGCAGATCTTGTCTTCTCATACTAGTG--G
61 TGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTC-T-TCAT-GTATTGACA
* *
20522222 TGAAATATATC
123 TGAAGTAGATC
* * ** * * * *
20522233 GAATATAGTAGATCTTGTATTCATGTA-T--TGACATGAAGTAGATC-AGAGATAGCAGATCTTG
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTG-GA-GAAGTAGATCGA-AGAAAGCAGATCTTG
* ***
20522294 TCTTCATGTATTGACATGAAGTAGATC-AGAGATAATGGATCTTGTCTTCATGTATTGACATGAA
63 TCTTCATGTATTGACGTGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGTATTGACATGAA
20522358 GTAGATC
127 GTAGATC
* * ** * * *
20522365 AAAGATAGCAGATCTTGACTTCCCATACTGGTGGTGAAGTAGATCGAAGATAGTAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCT
* * *
20522430 TCATGTATTGACATAAAGAAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTA
66 TCATGTATTGACGTGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTA
20522494 GATC
130 GATC
* ** * * * *
20522498 AGAGATAATGGATCTTGTCTTCATGTA-T--TGACATGAAGTAGATCAAAGATAGCAGATCTTGT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTG-GA-GAAGTAGATCGAAGAAAGCAGATCTTGT
*** * ** *
20522560 CTTCCCATACTGGTGGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGATG
64 CTTCATGTA-TTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAG
20522625 TAGATC
128 TAGATC
* ** * * * * * *
20522631 AGAGATAATGGATCTTGTCTTCATGTA-T--TGACATGAAGTAGATCAAAGATAGCAAATTTTGT
1 AAAGATAACAGATCTTGTCTTCCTGTACTGGTG-GA-GAAGTAGATCGAAGAAAGCAGATCTTGT
*** * ** *** *
20522693 CTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATATTGTCTTCATGTATTGACATGAAG
64 CTTCATGTA-TTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAG
20522758 TAGATC
128 TAGATC
* * *
20522764 AGAGATAGCAGATCTTGTCTACCTGTACT
1 AAAGATAACAGATCTTGTCTTCCTGTACT
20522793 AGTAGCGAAG
Statistics
Matches: 939, Mismatches: 122, Indels: 64
0.83 0.11 0.06
Matches are distributed among these distances:
130 8 0.01
131 9 0.01
132 127 0.14
133 614 0.65
134 129 0.14
135 44 0.05
136 5 0.01
137 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (133 bp):
AAAGATAACAGATCTTGTCTTCCTGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCT
TCATGTATTGACGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAG
ATC
Found at i:20522072 original size:177 final size:175
Alignment explanation
Indices: 20521600--20522783 Score: 1154
Period size: 177 Copynumber: 6.7 Consensus size: 175
20521590 ATACTGGTGG
* ** * * * **
20521600 TGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTG
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTAGTGACA-GAAGTAGATCAAAGAAAGCA
* * *
20521665 GATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATACTG
65 GATCTTGTCTTCCTGTACTGGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA-T-
* * * * * * *
20521730 GTGGC--GAAGTAGATCAAAGAAAGCAGATCTTATCTTCCCATACTAGT-A-G
127 -TGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTT--CAT-GTATTGACA
* * * * *
20521779 TGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAA-
1 TGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCATGTAGTGAC-AGAAGTAGATCAAAGA-AAG
* * * *
20521842 CAGATCTTGTCTTCCCGTACTGGTGGAGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
63 CAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTAT
* * * *
20521907 TGGCGTGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCATGTATTGGCG
127 TGACATGAAGTAGATCAG-AGATAGCAGATCTTGTCTTCATGTATTGACA
* * * *
20521956 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCGAAGAAAG
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTT--CAT-GTAGTGACAGAAGTAGATCAAAGAAAG
* * * * *
20522020 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTATTCATTTATT
63 CAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATT
** *
20522085 GACATGAAGTAGATCAGAGATAAAATATCTTGTCTTCATGTATTGACA
128 GACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
* * ** * * * *
20522133 TGAAGTAAATCAGAGATAATGGATCTTGTCTTCATGTATTGACATAAAATAGATCAAAGATAGCA
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTAGTGACA-GAAGTAGATCAAAGAAAGCA
* * * * * *
20522198 GATCTTGTCTT-CTCATACTAGTG-GTGAAATATATCGAATATAGTAGATCTTGTATTCATGTAT
65 GATCTTGTCTTCCT-GTACT-G-GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTAT
20522261 TGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
127 TGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
* ** * *
20522310 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTAGTGACA-GAAGTAGATCAAAGAAAGCA
* ** * *
20522375 GATCTTGACTTCCCATACTGGTGGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTG
65 GATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTG
* *
20522440 ACATAAAGAAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
129 ACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
* ** * *
20522487 TGAAGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTAGTGACA-GAAGTAGATCAAAGAAAGCA
** *
20522552 GATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTG
65 GATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTG
* ***
20522617 ACATGATGTAGATCAGAGATAATGGATCTTGTCTTCATGTATTGACA
129 ACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
* * * * * ** *
20522664 TGAAGTAGATCAAAGATAGCAAATTTTGTCTTCCCATACTGGTG-GTGAAGTAGATCGAAGATAA
1 TGAAGTAGATCAAAGATAACAGATCTTGTCTT--CAT-GTAGTGACAGAAGTAGATCAAAGA-AA
* * * * *
20522728 TG--GATATTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGCAGATCTTGTCT
62 -GCAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGA-AGATAGCAGATCTTGTCT
20522784 ACCTGTACTA
Statistics
Matches: 874, Mismatches: 102, Indels: 60
0.84 0.10 0.06
Matches are distributed among these distances:
174 4 0.00
175 8 0.01
176 39 0.04
177 601 0.69
178 99 0.11
179 113 0.13
180 10 0.01
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (175 bp):
TGAAGTAGATCAAAGATAACAGATCTTGTCTTCATGTAGTGACAGAAGTAGATCAAAGAAAGCAG
ATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGAC
ATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGACA
Found at i:20522814 original size:89 final size:89
Alignment explanation
Indices: 20522626--20522815 Score: 254
Period size: 89 Copynumber: 2.1 Consensus size: 89
20522616 GACATGATGT
* * *
20522626 AGATCAGAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAAATTTT
1 AGATCAAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAAATCTT
* * * * *
20522691 GTCTTCCCATACTGGTGGTGAAGT
66 GTCTACCCATACTAGTAGCGAAGC
* * *
20522715 AGATCGAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTT
1 AGATCAAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAAATCTT
**
20522780 GTCTACCTGTACTAGTAGCGAAGC
66 GTCTACCCATACTAGTAGCGAAGC
*
20522804 AGATTAAAGATA
1 AGATCAAAGATA
20522816 GCAAATTTTG
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (89 bp):
AGATCAAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAAATCTT
GTCTACCCATACTAGTAGCGAAGC
Found at i:20523310 original size:22 final size:21
Alignment explanation
Indices: 20523285--20523325 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
20523275 AAGAAACGCA
* *
20523285 AACAATACAACGAAGAAAAATG
1 AACAAAACAAC-AACAAAAATG
20523307 AACAAAACAACAACAAAAA
1 AACAAAACAACAACAAAAA
20523326 ACAAAATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.71, C:0.17, G:0.07, T:0.05
Consensus pattern (21 bp):
AACAAAACAACAACAAAAATG
Found at i:20528594 original size:23 final size:24
Alignment explanation
Indices: 20528566--20528618 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
20528556 AAAAATAATT
* *
20528566 TTAATTATTTTTAATTTTTAAAAA
1 TTAATTATTTTAAATTTTAAAAAA
20528590 -TAATT-TTTTAAATTTTAAAAAA
1 TTAATTATTTTAAATTTTAAAAAA
20528612 TTAATTA
1 TTAATTA
20528619 AATGCTTACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAATTATTTTAAATTTTAAAAAA
Found at i:20530114 original size:14 final size:13
Alignment explanation
Indices: 20530094--20530123 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20530084 ATTTAAAGGC
*
20530094 TAAAAAAAAAGAT
1 TAAAAAAAAAAAT
20530107 TAAAAAAAAAAAT
1 TAAAAAAAAAAAT
20530120 TAAA
1 TAAA
20530124 CGAGAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
TAAAAAAAAAAAT
Found at i:20532993 original size:21 final size:20
Alignment explanation
Indices: 20532962--20533004 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
20532952 TATACTTTTT
* *
20532962 AATAATTTTTAATTTTTTAA
1 AATAATTTTTAAATTTTAAA
20532982 AATAACTTTTTAAATTTTAAA
1 AATAA-TTTTTAAATTTTAAA
20533003 AA
1 AA
20533005 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTTAAATTTTAAA
Found at i:20532999 original size:20 final size:20
Alignment explanation
Indices: 20532962--20533007 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20532952 TATACTTTTT
*
20532962 AATAATTTTTAATTTTTTAA
1 AATAATTTTTAATATTTTAA
20532982 AATAACTTTTTAA-ATTTTAA
1 AATAA-TTTTTAATATTTTAA
20533002 AA-AATT
1 AATAATT
20533008 AATTAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 13 0.54
21 7 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATAATTTTTAATATTTTAA
Found at i:20533005 original size:22 final size:20
Alignment explanation
Indices: 20532962--20533011 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
20532952 TATACTTTTT
**
20532962 AATAATTTTTAATTTTTTAA
1 AATAATTTTTAATTTTAAAA
20532982 AATAACTTTTTAAATTTTAAAA
1 AATAA-TTTTT-AATTTTAAAA
20533004 AATTAATT
1 AA-TAATT
20533012 AATTGTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 5 0.20
22 12 0.48
23 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATAATTTTTAATTTTAAAA
Found at i:20534168 original size:12 final size:12
Alignment explanation
Indices: 20534151--20534191 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
20534141 TTTACAATGT
20534151 TAATAGTTAGTC
1 TAATAGTTAGTC
20534163 TAATAGTTAGTC
1 TAATAGTTAGTC
* *
20534175 TAAATACTTATTC
1 T-AATAGTTAGTC
20534188 TAAT
1 TAAT
20534192 TAAAAAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (12 bp):
TAATAGTTAGTC
Found at i:20534830 original size:22 final size:24
Alignment explanation
Indices: 20534773--20534837 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 24
20534763 GGAAGGTAAA
*
20534773 AAAGAAAGAAAAAGAGATTAGTAGAG
1 AAAGAAAGAAAAAG-GA-TAATAGAG
20534799 AAAGTAAAAGAAAAAGGA-AAT-GAG
1 AAAG--AAAGAAAAAGGATAATAGAG
*
20534823 AAAGAAAGTAAAAGG
1 AAAGAAAGAAAAAGG
20534838 GGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 10 0.29
24 7 0.20
25 2 0.06
26 4 0.11
27 2 0.06
28 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (24 bp):
AAAGAAAGAAAAAGGATAATAGAG
Found at i:20536385 original size:10 final size:10
Alignment explanation
Indices: 20536372--20536443 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
20536362 ATATATACAC
20536372 ATATTTATAT
1 ATATTTATAT
20536382 ATATTTATAT
1 ATATTTATAT
20536392 -TATTT-T-T
1 ATATTTATAT
20536399 AT-TTTCATA-
1 ATATTT-ATAT
*
20536408 ATTTTTATAT
1 ATATTTATAT
20536418 ATATTTATAT
1 ATATTTATAT
*
20536428 GCATATATATAT
1 --ATATTTATAT
20536440 ATAT
1 ATAT
20536444 ACATACGTGC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
7 4 0.08
8 2 0.04
9 11 0.21
10 26 0.50
12 9 0.17
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (10 bp):
ATATTTATAT
Found at i:20541688 original size:7 final size:7
Alignment explanation
Indices: 20541676--20541733 Score: 55
Period size: 7 Copynumber: 7.7 Consensus size: 7
20541666 AAAATTGTTA
20541676 AAAAAAG
1 AAAAAAG
20541683 AAAAAAG
1 AAAAAAG
20541690 AAAAAAAG
1 -AAAAAAG
20541698 AAGGAAAAAG
1 -A--AAAAAG
*
20541708 AAAGAAG
1 AAAAAAG
20541715 -AAAAAG
1 AAAAAAG
20541721 AAAAAAG
1 AAAAAAG
20541728 AGAAAA
1 A-AAAA
20541734 TGAGAGGCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
6 5 0.11
7 19 0.43
8 13 0.30
9 1 0.02
10 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:20541693 original size:13 final size:13
Alignment explanation
Indices: 20541677--20541733 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
20541667 AAATTGTTAA
20541677 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
* *
20541690 AAAAA-AAGAAGG
1 AAAAAGAAAAAAG
*
20541702 AAAAAGAAAGAAG
1 AAAAAGAAAAAAG
20541715 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
20541728 AGAAAA
1 A-AAAA
20541734 TGAGAGGCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.28
13 22 0.61
14 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:20542556 original size:311 final size:312
Alignment explanation
Indices: 20541783--20542718 Score: 1678
Period size: 312 Copynumber: 3.0 Consensus size: 312
20541773 ACTAAAGGGG
20541783 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
1 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
*
20541848 AGCAGCTCAAATTTTGATCAGATAGGGGCATGTGTTGGCATTGCTATACCTAAATCAACAGGAAA
66 AGCAGCTCAAATTTTGATCAGATAGGGGCATGTGTTGGAATTGCTATACCTAAATCAACAGGAAA
* * *
20541913 GGGTAGGCGACATCTTAGGGTATCGACAAAGTCCTGTAGATCTTCTAAACACATGTCAAACTCAG
131 GGGTAGGCGACATCTTGGGGCATCGACAAAGTCCTGTAGATCTCCTAAACACATGTCAAACTCAG
* * * *
20541978 AATGATCTTCAGAAAGTTTGCACAGAGAAGTTCAAACTGCGATATCTGGGGCATCTAGTCCTCAT
196 AATGGTCTTCAAAAAGTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCAT
*
20542043 ACTATTTATATTGAATTTTTTGCTCTCGGAATACTTCATTCTTTTTCAAGAT
261 ACTATTTATATTGAATTTTTTGCTCTTGGAATACTTCATTCTTTTTCAAGAT
20542095 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
1 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
* *
20542160 AGCAGCTCAAATTTTGATCAGATAGGGGCATATGTTGAAATTGCTATACCTAAATCAACAGGAAA
66 AGCAGCTCAAATTTTGATCAGATAGGGGCATGTGTTGGAATTGCTATACCTAAATCAACAGGAAA
20542225 GGGTAGGCGACATCTTGGGGCATCGACAAAGTCCTGTAGATCTCCTAAACACATGTCAAACTCAG
131 GGGTAGGCGACATCTTGGGGCATCGACAAAGTCCTGTAGATCTCCTAAACACATGTCAAACTCAG
20542290 AATGGTCTTCAAAAAGTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCAT
196 AATGGTCTTCAAAAAGTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCAT
20542355 ACTATTTATATTGAATTTTTTGCTCTTGGAATACTTCATTC-TTTTCAAGAT
261 ACTATTTATATTGAATTTTTTGCTCTTGGAATACTTCATTCTTTTTCAAGAT
20542406 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
1 ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
* * * *
20542471 AGCAGCTTAAATTTTGATCAGATAGGGGCATGTGTTGGTATTGCTATACCTAAATCAATAGAAAA
66 AGCAGCTCAAATTTTGATCAGATAGGGGCATGTGTTGGAATTGCTATACCTAAATCAACAGGAAA
* * *
20542536 GGTTAGGCGACATCTTGGGGCATCGTCAAAGTCCTGTAAATCTCCTAAACACATGTCAAACTCAG
131 GGGTAGGCGACATCTTGGGGCATCGACAAAGTCCTGTAGATCTCCTAAACACATGTCAAACTCAG
20542601 AATGGTCTTCAGAAAA-TTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCA
196 AATGGTCTTCA-AAAAGTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCA
*
20542665 TACTATTTATATTGAATTTTTTGCTCTTAGAATACTTCATTCTTTTTCAAGAT
260 TACTATTTATATTGAATTTTTTGCTCTTGGAATACTTCATTCTTTTTCAAGAT
20542718 A
1 A
20542719 CGTGTTCCCA
Statistics
Matches: 601, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
311 296 0.49
312 305 0.51
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (312 bp):
ATTTGAGTTGAAAACCTGAAAAGGGCGGCTCAAATTTTGATCAGAATGGGACATGAGCTGATCAG
AGCAGCTCAAATTTTGATCAGATAGGGGCATGTGTTGGAATTGCTATACCTAAATCAACAGGAAA
GGGTAGGCGACATCTTGGGGCATCGACAAAGTCCTGTAGATCTCCTAAACACATGTCAAACTCAG
AATGGTCTTCAAAAAGTTTGTACAGAGAAGTTCAAGCTGCGATATCTGGGGCATCTAGTCCTCAT
ACTATTTATATTGAATTTTTTGCTCTTGGAATACTTCATTCTTTTTCAAGAT
Found at i:20543621 original size:46 final size:46
Alignment explanation
Indices: 20543554--20543901 Score: 516
Period size: 46 Copynumber: 7.5 Consensus size: 46
20543544 CAGATCAATG
* * * * *
20543554 AGATAGCAGATCTTGTCTTCCTTTATTTGGTAGTGGAGTAAATTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* *
20543600 AGATAGCAGATCTTGTCTTCCTCTATTTGGCAGTGGAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* *
20543646 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGGTTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* *
20543692 ATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* * *
20543738 AGATAGGAGATCTTGTCTTCCTGTATTTGGTAGCGGGGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* * *
20543784 AGATAGCAGATCCTGTCTTCCTATATTTGGCAGCAGAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
* *
20543830 AGATAACAGATCTTGTCTTCCTGTATTTGGGCAGCGGAGTAGATTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGTAGATCGA
20543877 AGATAGCAGATCTTGTCTTCCTGTA
1 AGATAGCAGATCTTGTCTTCCTGTA
20543902 CTGGCAGTGA
Statistics
Matches: 272, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 232 0.85
47 40 0.15
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (46 bp):
AGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGA
Found at i:20544091 original size:132 final size:132
Alignment explanation
Indices: 20543936--20544366 Score: 711
Period size: 132 Copynumber: 3.3 Consensus size: 132
20543926 CAACGAACCT
* * *
20543936 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCCCCCTAAGCAGTAGTGG
1 TATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCATATTCTGTCCCCCTAAGCAGTAGTGG
* *
20544001 AGCAAATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAAATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGT
20544066 CC
131 CC
* *
20544068 TATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCATATTTTGTCCCCCTAAGTAGTAGTGG
1 TATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCATATTCTGTCCCCCTAAGCAGTAGTGG
* * *
20544133 AGCAGATCGAAGATGGTGAATTTTATCTTCCCAAGATAATGGAGAAGCAGATTTGAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGT
20544198 CC
131 CC
* *
20544200 TATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCATATTCTGTCCCTCTAAGCAGTAGTGG
1 TATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCATATTCTGTCCCCCTAAGCAGTAGTGG
20544265 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGT
20544330 CC
131 CC
* * *
20544332 TGTCTCCCTAAGA-AGTAGTGGAGTAGATAGAAGAT
1 TATCTCCCTAA-ACAGTAGTGGAGTAGGTCGAAGAT
20544367 GGTGAATCTT
Statistics
Matches: 277, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 277 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
TATCTCCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCATATTCTGTCCCCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGT
CC
Found at i:20544367 original size:220 final size:220
Alignment explanation
Indices: 20544112--20544524 Score: 686
Period size: 220 Copynumber: 1.9 Consensus size: 220
20544102 TTGCATATTT
* * *
20544112 TGTCCCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATTTTATCTTCCCAAGATAATGGAG
1 TGTCCCCCTAAGAAGTAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAATGGAG
* * *
20544177 AAGCAGATTTGAGCCA-TTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCATA
66 AAGCAGATTTAAGCCATTTA-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGA
20544241 TTCTGTC-CCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
130 TTCTGTCTCC-CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
20544305 GGAGAAGCAGATTTAAGCCATTAGTCC
194 GGAGAAGCAGATTTAAGCCATTAGTCC
* * *
20544332 TGTCTCCCTAAGAAGTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAG
1 TGTCCCCCTAAGAAGTAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAATGGAG
* * *
20544397 AAGCAGGTTTAAGCCATTTATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGTTTGCAGAT
66 AAGCAGATTTAAGCCATTTATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGAT
20544462 TCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
131 TCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
20544525 AGGGAAGTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
220 174 0.97
221 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (220 bp):
TGTCCCCCTAAGAAGTAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAATGGAG
AAGCAGATTTAAGCCATTTATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGAT
TCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGG
AGAAGCAGATTTAAGCCATTAGTCC
Found at i:20544396 original size:42 final size:42
Alignment explanation
Indices: 20544259--20544396 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 42
20544249 CTCTAAGCAG
*
20544259 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
1 TAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGA
** * * *
20544301 TAGTGGAGAAGCAGATTTAAGCCAT--T-AGTCCTGTC-TCCCTAAGAA
1 TAGT-G-G-AGCAGATAGAAG--ATGGTGAATCTTATCTTCCC-AAG-A
*
20544346 GTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGA
1 -TAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGA
20544389 TAGTGGAG
1 TAGTGGAG
20544397 AAGCAGGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
41 2 0.03
42 12 0.16
43 16 0.22
44 20 0.27
45 17 0.23
46 4 0.05
47 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (42 bp):
TAGTGGAGCAGATAGAAGATGGTGAATCTTATCTTCCCAAGA
Found at i:20544443 original size:88 final size:88
Alignment explanation
Indices: 20544251--20544445 Score: 329
Period size: 88 Copynumber: 2.2 Consensus size: 88
20544241 TTCTGTCCCT
* *
20544251 CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
1 CTAAGCAGTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
*
20544316 TTTAAGCCATTAGTCCTGTCTCC
66 TTTAAGCCATTAGTCCTATCTCC
* *
20544339 CTAAGAAGTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGG
1 CTAAGCAGTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
20544404 TTTAAGCCATTTA-TCCTATCTCC
66 TTTAAGCCA-TTAGTCCTATCTCC
20544427 CTAAGCAGTAGTGGAGTAG
1 CTAAGCAGTAGTGGAGTAG
20544446 GTTAAAGTTT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
88 97 0.97
89 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (88 bp):
CTAAGCAGTAGTGGAGTAGATAGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
TTTAAGCCATTAGTCCTATCTCC
Found at i:20544831 original size:20 final size:19
Alignment explanation
Indices: 20544798--20544842 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
20544788 TGCCCACCCC
*
20544798 AAAACCCATTACAAACTAAAA
1 AAAACCCATAAC-AAC-AAAA
20544819 AAAACCCA-AACAACAAAA
1 AAAACCCATAACAACAAAA
20544837 AAAACC
1 AAAACC
20544843 AGCCTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 3 0.13
20 2 0.09
21 8 0.35
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAACCCATAACAACAAAA
Found at i:20546626 original size:25 final size:24
Alignment explanation
Indices: 20546589--20546689 Score: 100
Period size: 25 Copynumber: 4.2 Consensus size: 24
20546579 TTTATTGTAT
20546589 TTTTTAATGTATTATATTAATGTG
1 TTTTTAATGTATTATATTAATGTG
* *
20546613 TTTTGGTAAT-TATTGTAATT-ATAT-
1 TTTT--TAATGTATTAT-ATTAATGTG
* *
20546637 TATTTAATGTATTATATTAATGTA
1 TTTTTAATGTATTATATTAATGTG
*
20546661 TTATTTAATGTATAATATTAATGTG
1 TT-TTTAATGTATTATATTAATGTG
20546686 TTTT
1 TTTT
20546690 GGTAATTATT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
22 7 0.11
23 8 0.13
24 10 0.16
25 30 0.48
26 7 0.11
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (24 bp):
TTTTTAATGTATTATATTAATGTG
Found at i:20546673 original size:73 final size:75
Alignment explanation
Indices: 20546560--20546700 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 75
20546550 TATTTTTGTA
* * * *
20546560 ATTATATTATTGTACTATATTTATTGTATTTTTTAATGTATTATATTAATGTGTTTTGGTAATTA
1 ATTATATTAATGTACTATATTTAATGTATTATTTAATGTATAATATTAATGTGTTTTGGTAATTA
20546625 TTGTAATTAT
66 TTGTAATTAT
*
20546635 ATTAT-TTAATGTATTATA-TTAATGTATTATTTAATGTATAATATTAATGTGTTTTGGTAATTA
1 ATTATATTAATGTACTATATTTAATGTATTATTTAATGTATAATATTAATGTGTTTTGGTAATTA
20546698 TTG
66 TTG
20546701 CAACAACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 45 0.74
74 11 0.18
75 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (75 bp):
ATTATATTAATGTACTATATTTAATGTATTATTTAATGTATAATATTAATGTGTTTTGGTAATTA
TTGTAATTAT
Found at i:20561697 original size:2 final size:2
Alignment explanation
Indices: 20561678--20561718 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
20561668 AATTACACAA
* *
20561678 TC TC TT TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20561719 TCTTTTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:20564425 original size:16 final size:17
Alignment explanation
Indices: 20564405--20564452 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
20564395 AAATAATATT
20564405 TATATTTTTTTATTTTA
1 TATATTTTTTTATTTTA
** *
20564422 -ATATTTAATAATTTTA
1 TATATTTTTTTATTTTA
*
20564438 TACATTTTTTTATTT
1 TATATTTTTTTATTT
20564453 ATTGAAAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTTTTTATTTTA
Found at i:20576397 original size:35 final size:35
Alignment explanation
Indices: 20576358--20576484 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
20576348 ATGGTGTCGT
* * **
20576358 TCCATAGAGCCAGTAGATCATCT-CTGTGATGCCAC
1 TCCATAAAGCCAGTAGACCAT-TACCATGATGCCAC
* * *
20576393 TCCATAGAGCCAGTAGACCATTACCATAATGCTAC
1 TCCATAAAGCCAGTAGACCATTACCATGATGCCAC
* *
20576428 TCTATAAAGCCAGTAGACCATTGCCATGATGCCAC
1 TCCATAAAGCCAGTAGACCATTACCATGATGCCAC
*
20576463 TCCATAAAGCTAGTAGACCATT
1 TCCATAAAGCCAGTAGACCATT
20576485 TTTCTAACCA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 1 0.01
35 78 0.99
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (35 bp):
TCCATAAAGCCAGTAGACCATTACCATGATGCCAC
Found at i:20577806 original size:25 final size:24
Alignment explanation
Indices: 20577770--20577856 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 24
20577760 TTTAGACGTT
*
20577770 AGACACAA-TTAATGTGTCTGAACTA
1 AGAC-CAATTTAAT-TGTCTAAACTA
*
20577795 AGACCAATTTAATTTGTCAAAACTA
1 AGACCAATTTAA-TTGTCTAAACTA
*
20577820 AGTCCAATTTAATTCGTCTAAACTA
1 AGACCAATTTAATT-GTCTAAACTA
20577845 AGACCAATTTAA
1 AGACCAATTTAA
20577857 ATAATATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 5 0.09
25 48 0.89
26 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (24 bp):
AGACCAATTTAATTGTCTAAACTA
Found at i:20582640 original size:25 final size:24
Alignment explanation
Indices: 20582618--20582690 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 24
20582608 ACAATTAAGG
*
20582618 TGTCTGAACTAAGACCAATTTAATT
1 TGTCTAAACTAAGACCAATTTAA-T
* ***
20582643 TGTCAAAACTAATTTCAATTTAAT
1 TGTCTAAACTAAGACCAATTTAAT
20582667 TCGTCTAAACTAAGACCAATTTAA
1 T-GTCTAAACTAAGACCAATTTAA
20582691 ATCATATATT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (24 bp):
TGTCTAAACTAAGACCAATTTAAT
Found at i:20591086 original size:10 final size:10
Alignment explanation
Indices: 20591071--20591112 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
20591061 ATTGGTCAAG
20591071 GAAAAAAAAA
1 GAAAAAAAAA
20591081 GAAAAATAAAA
1 GAAAAA-AAAA
*
20591092 GAAAAGAAAA
1 GAAAAAAAAA
20591102 GAAAGAAAAAA
1 GAAA-AAAAAA
20591113 TAAATATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:20592323 original size:8 final size:8
Alignment explanation
Indices: 20592312--20592339 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20592302 AAAATAGTTT
20592312 AGAAGAAG
1 AGAAGAAG
20592320 AGAAGAAG
1 AGAAGAAG
20592328 AGAAGAAG
1 AGAAGAAG
20592336 AGAA
1 AGAA
20592340 TGGAAGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:20592450 original size:18 final size:18
Alignment explanation
Indices: 20592423--20592475 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
20592413 AAAAAATAGA
* *
20592423 AGAAAAGGAAAGGAAATG
1 AGAAAGGGAAAGGAAAAG
20592441 AGAAAGGG-AAGGAAAAG
1 AGAAAGGGAAAGGAAAAG
* *
20592458 AGAATGGGAAAGAAAAAG
1 AGAAAGGGAAAGGAAAAG
20592476 GGATTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (18 bp):
AGAAAGGGAAAGGAAAAG
Found at i:20592463 original size:23 final size:22
Alignment explanation
Indices: 20592407--20592469 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
20592397 AGGAGAATGA
*
20592407 GAAGGAAAA-AAAT-AG-AAGA
1 GAAGGAAAAGAAATGAGAAAGG
* *
20592426 AAAGGAAAGGAAATGAGAAAGG
1 GAAGGAAAAGAAATGAGAAAGG
*
20592448 GAAGGAAAAGAGAATGGGAAAG
1 GAAGGAAAAGA-AATGAGAAAG
20592470 AAAAAGGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 2 0.06
22 12 0.35
23 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (22 bp):
GAAGGAAAAGAAATGAGAAAGG
Found at i:20596411 original size:27 final size:27
Alignment explanation
Indices: 20596380--20596557 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
20596370 TAAATTGTAC
*
20596380 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20596407 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20596433 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
20596461 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20596488 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
20596516 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20596543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20596558 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20596441 original size:54 final size:55
Alignment explanation
Indices: 20596380--20596557 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
20596370 TAAATTGTAC
* **
20596380 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
20596435 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
20596488 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
20596543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20596558 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:20604485 original size:27 final size:27
Alignment explanation
Indices: 20604454--20604630 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20604444 TAAATTGTAC
*
20604454 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20604481 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20604507 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
20604534 CGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20604561 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
20604589 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20604616 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20604631 GACTAATATA
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 23 0.18
27 82 0.63
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20606391 original size:33 final size:33
Alignment explanation
Indices: 20606327--20606447 Score: 127
Period size: 33 Copynumber: 3.7 Consensus size: 33
20606317 AACCCACCAT
* * * * *
20606327 CACTGGAGTACTCTACTTCTCTTGGCCCGTATC
1 CACTGCAGTACTCCACTCCTCCTGGCTCGTATC
* * *
20606360 TACTACAGTACTCCATTCCTCCTGGCTCGTATC
1 CACTGCAGTACTCCACTCCTCCTGGCTCGTATC
* *
20606393 CATTGCGGTACTCCACTCCT-CTCGGCTCGTATC
1 CACTGCAGTACTCCACTCCTCCT-GGCTCGTATC
*
20606426 CACTGTAGTACTCCACTCCTCC
1 CACTGCAGTACTCCACTCCTCC
20606448 CGACTCAAGT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
32 2 0.03
33 67 0.96
34 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.15, T:0.31
Consensus pattern (33 bp):
CACTGCAGTACTCCACTCCTCCTGGCTCGTATC
Found at i:20606772 original size:48 final size:48
Alignment explanation
Indices: 20606701--20606809 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
20606691 CTTTGTATTT
* **
20606701 ATTT-AATTGAGATTTATTACAACATTAAAACTTGGAACAAACTTTGTA
1 ATTTAAATT-AGATTAATTACAACATTAAAACGAGGAACAAACTTTGTA
*
20606749 ATTTAAATTAGATTAATTGCAACATTAAAACGAGGAACAAACTTTGTA
1 ATTTAAATTAGATTAATTACAACATTAAAACGAGGAACAAACTTTGTA
*
20606797 ATATAAATTAGAT
1 ATTTAAATTAGAT
20606810 ACATTAGAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (48 bp):
ATTTAAATTAGATTAATTACAACATTAAAACGAGGAACAAACTTTGTA
Found at i:20608855 original size:111 final size:111
Alignment explanation
Indices: 20608713--20608930 Score: 420
Period size: 111 Copynumber: 2.0 Consensus size: 111
20608703 AATAAATGTC
20608713 CCATAAAATAGTCCATTTACAAACTGATAGCCCAATTAATCTAACCTAAATTACCTAAATACATT
1 CCATAAAATAGTCCATTTACAAACTGATAGCCCAATTAATCTAACCTAAATTACCTAAATACATT
20608778 AAGCCTGATAACCCAAATTACATCAAACCCACTAGCCTAAAAAACCT
66 AAGCCTGATAACCCAAATTACATCAAA-CCACTAGCCTAAAAAACCT
20608825 CCAT-AAATAGTCCATTTACAAACTGATAGCCCAATTAATCTAACCTAAATTACCTAAATACATT
1 CCATAAAATAGTCCATTTACAAACTGATAGCCCAATTAATCTAACCTAAATTACCTAAATACATT
20608889 AAGCCTGATAACCCAAATTACATCAAACCACTAGCCTAAAAA
66 AAGCCTGATAACCCAAATTACATCAAACCACTAGCCTAAAAA
20608931 CCTTTAGCCC
Statistics
Matches: 106, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 15 0.14
111 87 0.82
112 4 0.04
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (111 bp):
CCATAAAATAGTCCATTTACAAACTGATAGCCCAATTAATCTAACCTAAATTACCTAAATACATT
AAGCCTGATAACCCAAATTACATCAAACCACTAGCCTAAAAAACCT
Found at i:20612708 original size:21 final size:21
Alignment explanation
Indices: 20612684--20612723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20612674 AGAATTGCCA
*
20612684 AAATAGTTTGAAGAGAAATGG
1 AAATAGATTGAAGAGAAATGG
*
20612705 AAATGGATTGAAGAGAAAT
1 AAATAGATTGAAGAGAAAT
20612724 TTAGGGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATAGATTGAAGAGAAATGG
Found at i:20614833 original size:7 final size:7
Alignment explanation
Indices: 20614812--20614901 Score: 51
Period size: 7 Copynumber: 12.3 Consensus size: 7
20614802 GTTCAGATTC
20614812 AATAAAA
1 AATAAAA
20614819 AATCAAAA
1 AAT-AAAA
*
20614827 TATAAAA
1 AATAAAA
*
20614834 AAAAATCAA
1 AATAA--AA
20614843 TCAATAAAA
1 --AATAAAA
*
20614852 AA-ATAA
1 AATAAAA
20614858 AATAAAA
1 AATAAAA
*
20614865 AA-ATGAA
1 AATA-AAA
20614872 AATAAAA
1 AATAAAA
*
20614879 AA-AAGA
1 AATAAAA
20614885 AATAAAAA
1 AAT-AAAA
20614893 AATAAAA
1 AATAAAA
20614900 AA
1 AA
20614902 ATCAAAATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
6 11 0.17
7 31 0.49
8 13 0.21
9 4 0.06
11 4 0.06
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:20614865 original size:14 final size:14
Alignment explanation
Indices: 20614848--20614922 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 14
20614838 ATCAATCAAT
20614848 AAAAAAATAAAAT-
1 AAAAAAATAAAATA
20614861 AAAAAAATGAAAATA
1 AAAAAAAT-AAAATA
*
20614876 AAAAAAA-GAAAT-
1 AAAAAAATAAAATA
20614888 AAAAAAATAAAA-A
1 AAAAAAATAAAATA
*
20614901 AATCAAAATCAAAATGA
1 AA-AAAAAT-AAAAT-A
20614918 AAAAA
1 AAAAA
20614923 GAAAAAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 7 0.14
13 17 0.34
14 10 0.20
15 11 0.22
16 2 0.04
17 3 0.06
ACGTcount: A:0.81, C:0.03, G:0.04, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:20614875 original size:27 final size:27
Alignment explanation
Indices: 20614823--20614927 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
20614813 ATAAAAAATC
* *
20614823 AAAATATAA-AAAAAAATCAATCAATAAA
1 AAAATAAAATAAAAAAATGAA--AATAAA
20614851 AAAATAAAATAAAAAAATGAAAATAAA
1 AAAATAAAATAAAAAAATGAAAATAAA
20614878 AAAA-AGAAATAAAAAAAT-AAAA-AAA
1 AAAATA-AAATAAAAAAATGAAAATAAA
*
20614903 TCAAAATCAAAATGAAAAAA-GAAAA
1 --AAAAT-AAAATAAAAAAATGAAAA
20614928 AGAAAAGAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
25 3 0.04
26 5 0.07
27 26 0.39
28 22 0.33
29 11 0.16
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (27 bp):
AAAATAAAATAAAAAAATGAAAATAAA
Found at i:20614882 original size:28 final size:28
Alignment explanation
Indices: 20614823--20614927 Score: 87
Period size: 28 Copynumber: 3.8 Consensus size: 28
20614813 ATAAAAAATC
* *
20614823 AAAATATAA-AAAAAAATCAATCAAT-AAA
1 AAAATAAAATAAAAAAATGAA--AATAAAA
20614851 AAAATAAAATAAAAAAATGAAAATAAAA
1 AAAATAAAATAAAAAAATGAAAATAAAA
* *
20614879 AAAA-GAAATAAAAAAAT-AAAA-AAATC
1 AAAATAAAATAAAAAAATGAAAATAAA-A
*
20614905 AAAATCAAAATGAAAAAA-GAAAA
1 AAAAT-AAAATAAAAAAATGAAAA
20614928 AGAAAAGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
25 3 0.05
26 8 0.12
27 15 0.23
28 29 0.45
29 10 0.15
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (28 bp):
AAAATAAAATAAAAAAATGAAAATAAAA
Found at i:20614908 original size:8 final size:8
Alignment explanation
Indices: 20614845--20614908 Score: 62
Period size: 8 Copynumber: 7.9 Consensus size: 8
20614835 AAAATCAATC
20614845 AATAAAAA
1 AATAAAAA
20614853 AAT---AA
1 AATAAAAA
20614858 AATAAAAA
1 AATAAAAA
20614866 AATGAAAATA
1 AAT-AAAA-A
*
20614876 AAAAAAAGA
1 AATAAAA-A
20614885 AATAAAAA
1 AATAAAAA
20614893 AATAAAAA
1 AATAAAAA
20614901 AATCAAAA
1 AAT-AAAA
20614909 TCAAAATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.11
8 20 0.43
9 19 0.40
10 3 0.06
ACGTcount: A:0.83, C:0.02, G:0.03, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Done.